bioconductor.org "GenomeAnnotation" keyword
View the packages on the bioconductor.org package registry that are tagged with the "GenomeAnnotation" keyword.
Top 8.3% on bioconductor.org
5 versions - Latest release: 3 months ago - 5 dependent packages - 63.3 thousand downloads total - 192 stars on GitHub - 1 maintainer
EnrichedHeatmap 1.38.0
Making Enriched Heatmaps5 versions - Latest release: 3 months ago - 5 dependent packages - 63.3 thousand downloads total - 192 stars on GitHub - 1 maintainer
scPipe 2.8.0
Pipeline for single cell multi-omic data pre-processing5 versions - Latest release: 3 months ago - 20.8 thousand downloads total - 69 stars on GitHub - 1 maintainer
Top 5.7% on bioconductor.org
5 versions - Latest release: 2 months ago - 3 dependent packages - 64.8 thousand downloads total - 87 stars on GitHub - 1 maintainer
rGREAT 2.10.0
GREAT Analysis - Functional Enrichment on Genomic Regions5 versions - Latest release: 2 months ago - 3 dependent packages - 64.8 thousand downloads total - 87 stars on GitHub - 1 maintainer
garfield 1.36.0
GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction5 versions - Latest release: 3 months ago - 14.3 thousand downloads total - 1 maintainer
Top 5.7% on bioconductor.org
5 versions - Latest release: 3 months ago - 2 dependent packages - 94.5 thousand downloads total - 1 maintainer
GreyListChIP 1.40.0
Grey Lists -- Mask Artefact Regions Based on ChIP Inputs5 versions - Latest release: 3 months ago - 2 dependent packages - 94.5 thousand downloads total - 1 maintainer
compEpiTools 1.42.0
Tools for computational epigenomics5 versions - Latest release: 3 months ago - 22.7 thousand downloads total - 1 maintainer
plotgardener 1.14.0
Coordinate-Based Genomic Visualization Package for R10 versions - Latest release: 3 months ago - 4 dependent packages - 16.9 thousand downloads total - 321 stars on GitHub - 2 maintainers
Top 5.4% on bioconductor.org
5 versions - Latest release: 3 months ago - 4 dependent packages - 61.4 thousand downloads total - 50 stars on GitHub - 1 maintainer
QDNAseq 1.44.0
Quantitative DNA Sequencing for Chromosomal Aberrations5 versions - Latest release: 3 months ago - 4 dependent packages - 61.4 thousand downloads total - 50 stars on GitHub - 1 maintainer
UCSC.utils 1.4.0
Low-level utilities to retrieve data from the UCSC Genome Browser3 versions - Latest release: 2 months ago - 2 dependent packages - 985 thousand downloads total - 1 maintainer
IWTomics 1.32.0
Interval-Wise Testing for Omics Data5 versions - Latest release: 3 months ago - 14.6 thousand downloads total - 1 maintainer
mCSEA 1.28.0
Methylated CpGs Set Enrichment Analysis6 versions - Latest release: 3 months ago - 1 dependent package - 14.6 thousand downloads total - 1 maintainer
branchpointer 1.34.0
Prediction of intronic splicing branchpoints5 versions - Latest release: 3 months ago - 15.5 thousand downloads total - 1 maintainer
GrafGen 1.4.0
Classification of Helicobacter Pylori Genomes3 versions - Latest release: 3 months ago - 3.36 thousand downloads total - 1 maintainer
fcScan 1.22.0
fcScan for detecting clusters of coordinates with user defined options5 versions - Latest release: 3 months ago - 11.4 thousand downloads total - 1 maintainer
AssessORF 1.26.0
Assess Gene Predictions Using Proteomics and Evolutionary Conservation5 versions - Latest release: 3 months ago - 13.8 thousand downloads total - 1 maintainer
BREW3R.r 1.4.0
R package associated to BREW3R4 versions - Latest release: 3 months ago - 3.47 thousand downloads total - 0 stars on GitHub - 1 maintainer
txdbmaker 1.4.2
Tools for making TxDb objects from genomic annotations7 versions - Latest release: about 1 month ago - 8 dependent packages - 97.5 thousand downloads total - 1 maintainer
COCOA 2.22.0
Coordinate Covariation Analysis5 versions - Latest release: 3 months ago - 11.7 thousand downloads total - 1 maintainer
atSNP 1.24.0
Affinity test for identifying regulatory SNPs5 versions - Latest release: 3 months ago - 12.8 thousand downloads total - 1 stars on GitHub - 1 maintainer
HilbertCurve 2.2.0
Making 2D Hilbert Curve5 versions - Latest release: 3 months ago - 1 dependent package - 21.1 thousand downloads total - 43 stars on GitHub - 1 maintainer
MIRA 1.30.0
Methylation-Based Inference of Regulatory Activity5 versions - Latest release: 3 months ago - 1 dependent package - 15 thousand downloads total - 1 maintainer
SMITE 1.36.0
Significance-based Modules Integrating the Transcriptome and Epigenome5 versions - Latest release: 3 months ago - 16.2 thousand downloads total - 1 stars on GitHub - 2 maintainers
Top 5.5% on bioconductor.org
5 versions - Latest release: 3 months ago - 55 thousand downloads total - 1 maintainer
MEDIPS 1.60.0
DNA IP-seq data analysis5 versions - Latest release: 3 months ago - 55 thousand downloads total - 1 maintainer
Top 0.2% on bioconductor.org
16 versions - Latest release: 4 days ago - 342 dependent packages - 8.77 million downloads total - 1 maintainer
GenomeInfoDb 1.44.1
Utilities for manipulating chromosome names, including modifying them to follow a particular nami...16 versions - Latest release: 4 days ago - 342 dependent packages - 8.77 million downloads total - 1 maintainer
Top 1.4% on bioconductor.org
7 versions - Latest release: 3 months ago - 54 dependent packages - 1.37 million downloads total - 1 maintainer
HDF5Array 1.36.0
HDF5 datasets as array-like objects in R7 versions - Latest release: 3 months ago - 54 dependent packages - 1.37 million downloads total - 1 maintainer
Top 0.5% on bioconductor.org
7 versions - Latest release: 3 months ago - 111 dependent packages - 6.24 million downloads total - 1 maintainer
DelayedArray 0.34.1
A unified framework for working transparently with on-disk and in-memory array-like datasets7 versions - Latest release: 3 months ago - 111 dependent packages - 6.24 million downloads total - 1 maintainer
Top 0.5% on bioconductor.org
8 versions - Latest release: 3 months ago - 183 dependent packages - 3.79 million downloads total - 1 maintainer
GenomicFeatures 1.60.0
Query the gene models of a given organism/assembly8 versions - Latest release: 3 months ago - 183 dependent packages - 3.79 million downloads total - 1 maintainer
Top 1.8% on bioconductor.org
7 versions - Latest release: 3 months ago - 14 dependent packages - 363 thousand downloads total - 2 maintainers
Rsubread 2.22.1
Mapping, quantification and variant analysis of sequencing data7 versions - Latest release: 3 months ago - 14 dependent packages - 363 thousand downloads total - 2 maintainers
Top 0.2% on bioconductor.org
6 versions - Latest release: 3 months ago - 632 dependent packages - 6.15 million downloads total - 1 maintainer
SummarizedExperiment 1.38.1
A container (S4 class) for matrix-like assays6 versions - Latest release: 3 months ago - 632 dependent packages - 6.15 million downloads total - 1 maintainer
Top 0.1% on bioconductor.org
8 versions - Latest release: 3 months ago - 604 dependent packages - 7.61 million downloads total - 1 maintainer
GenomicRanges 1.60.0
Representation and manipulation of genomic intervals8 versions - Latest release: 3 months ago - 604 dependent packages - 7.61 million downloads total - 1 maintainer
Top 5.0% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 69.1 thousand downloads total - 1 maintainer
microRNA 1.66.0
Data and functions for dealing with microRNAs5 versions - Latest release: 3 months ago - 1 dependent package - 69.1 thousand downloads total - 1 maintainer
Top 6.8% on bioconductor.org
5 versions - Latest release: 3 months ago - 6 dependent packages - 71.8 thousand downloads total - 25 stars on GitHub - 1 maintainer
annotatr 1.34.0
Annotation of Genomic Regions to Genomic Annotations5 versions - Latest release: 3 months ago - 6 dependent packages - 71.8 thousand downloads total - 25 stars on GitHub - 1 maintainer
plyxp 1.2.0
Data masks for SummarizedExperiment enabling dplyr-like manipulation3 versions - Latest release: 2 months ago - 1.92 thousand downloads total - 4 stars on GitHub - 1 maintainer
nullranges 1.14.0
Generation of null ranges via bootstrapping or covariate matching5 versions - Latest release: 3 months ago - 1 dependent package - 11 thousand downloads total - 22 stars on GitHub - 1 maintainer
bambu 3.10.1
Context-Aware Transcript Quantification from Long Read RNA-Seq data9 versions - Latest release: about 1 month ago - 1 dependent package - 25.8 thousand downloads total - 212 stars on GitHub - 1 maintainer
Top 3.3% on bioconductor.org
12 versions - Latest release: 3 months ago - 2 dependent packages - 166 thousand downloads total - 1 maintainer
DMRcate 3.4.0
Methylation array and sequencing spatial analysis methods12 versions - Latest release: 3 months ago - 2 dependent packages - 166 thousand downloads total - 1 maintainer
PICB 1.0.0
piRNA Cluster Builder1 version - Latest release: 3 months ago - 1.32 thousand downloads total - 5 stars on GitHub - 1 maintainer
VariantExperiment 1.22.0
A RangedSummarizedExperiment Container for VCF/GDS Data with GDS Backend6 versions - Latest release: 3 months ago - 8.51 thousand downloads total - 1 stars on GitHub - 1 maintainer
HelloRanges 1.34.0
Introduce *Ranges to bedtools users5 versions - Latest release: 2 months ago - 2 dependent packages - 20.6 thousand downloads total - 1 maintainer
Top 6.0% on bioconductor.org
10 versions - Latest release: 2 months ago - 3 dependent packages - 123 thousand downloads total - 68 stars on GitHub - 1 maintainer
tximeta 1.26.1
Transcript Quantification Import with Automatic Metadata10 versions - Latest release: 2 months ago - 3 dependent packages - 123 thousand downloads total - 68 stars on GitHub - 1 maintainer
planttfhunter 1.8.0
Identification and classification of plant transcription factors5 versions - Latest release: 2 months ago - 4.67 thousand downloads total - 1 stars on GitHub - 1 maintainer
geneXtendeR 1.34.0
Optimized Functional Annotation Of ChIP-seq Data5 versions - Latest release: 2 months ago - 18.1 thousand downloads total - 9 stars on GitHub - 1 maintainer
ASpli 2.18.0
Analysis of Alternative Splicing Using RNA-Seq5 versions - Latest release: 3 months ago - 1 dependent package - 23.6 thousand downloads total - 1 maintainer
GenomicDistributions 1.16.1
GenomicDistributions: fast analysis of genomic intervals with Bioconductor5 versions - Latest release: 3 months ago - 9.47 thousand downloads total - 1 maintainer
Top 6.6% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 51.9 thousand downloads total - 3 stars on GitHub - 1 maintainer
Organism.dplyr 1.36.0
dplyr-based Access to Bioconductor Annotation Resources5 versions - Latest release: 3 months ago - 1 dependent package - 51.9 thousand downloads total - 3 stars on GitHub - 1 maintainer
NoRCE 1.19.0
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment5 versions - Latest release: 3 months ago - 8.12 thousand downloads total - 1 stars on GitHub - 1 maintainer
RCAS 1.34.0
RNA Centric Annotation System6 versions - Latest release: 3 months ago - 1 dependent package - 20.4 thousand downloads total - 1 maintainer
BSgenomeForge 1.8.0
Forge your own BSgenome data package8 versions - Latest release: 3 months ago - 1 dependent package - 13.3 thousand downloads total - 1 maintainer
LOLA 1.38.0
Locus overlap analysis for enrichment of genomic ranges5 versions - Latest release: 3 months ago - 5 dependent packages - 31.3 thousand downloads total - 1 maintainer
pram 1.24.0
Pooling RNA-seq datasets for assembling transcript models5 versions - Latest release: 3 months ago - 9.18 thousand downloads total - 1 stars on GitHub - 1 maintainer
ODER 1.6.0 removed
Optimising the Definition of Expressed Regions1 version - Latest release: almost 2 years ago - 1.01 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 0.3% on bioconductor.org
4 versions - Latest release: 9 months ago - 255 dependent packages - 6.49 million downloads total - 1 maintainer
AnnotationDbi 1.68.0
Manipulation of SQLite-based annotations in Bioconductor4 versions - Latest release: 9 months ago - 255 dependent packages - 6.49 million downloads total - 1 maintainer
InterMineR 1.26.0 removed
R Interface with InterMine-Powered Databases4 versions - Latest release: about 1 year ago - 12 thousand downloads total - 17 stars on GitHub - 1 maintainer
DeepBlueR 1.27.0 removed
DeepBlueR2 versions - Latest release: over 1 year ago - 12.8 thousand downloads total - 3 maintainers
STAN 2.28.0 removed
The Genomic STate ANnotation Package1 version - Latest release: almost 2 years ago - 14.8 thousand downloads total - 1 maintainer
Related Keywords
Software
55
Sequencing
32
Annotation
20
Coverage
19
Genetics
14
Visualization
13
ImmunoOncology
12
DataImport
12
RNASeq
11
FunctionalGenomics
10
ChIPSeq
10
Infrastructure
10
GeneExpression
9
Preprocessing
8
DataRepresentation
8
DifferentialExpression
8
GenomeAssembly
7
GeneRegulation
7
Transcriptomics
7
GeneSetEnrichment
6
Microarray
6
SequenceMatching
6
QualityControl
6
Epigenetics
6
DNAMethylation
6
MultipleComparison
5
Alignment
5
Transcription
5
SystemsBiology
5
GO
5
DifferentialMethylation
4
SingleCell
4
FunctionalPrediction
4
MethylSeq
3
MethylationArray
3
DifferentialPeakCalling
3
rna-seq
3
r
3
MotifAnnotation
3
genomics
3
bioconductor
3
GeneTarget
3
HiddenMarkovModel
3
bioconductor-package
2
BiologicalQuestion
2
genome-annotation
2
annotation
2
VariantAnnotation
2
SNP
2
GenomeWideAssociation
2
HistoneModification
2
AlternativeSplicing
2
ChipOnChip
2
TimeCourse
2
transcriptomics
2
Classification
2
GenomicVariation
2
CpGIsland
2
StatisticalMethod
2
CopyNumberVariation
2
TwoChannel
2
WholeGenome
2
DNaseSeq
2
ATACSeq
2
Proteomics
2
GenePrediction
2
ComparativeGenomics
2
Pathways
2
chip-seq
1
c
1
bioinformatics
1
PeakDetection
1
NaturalLanguageProcessing
1
HiC
1
transcription-factors
1
rstats
1
protein-domains
1
plants
1
plant-genomics
1
hidden-markov-models
1
computational-biology
1
epigenetics
1
functional-annotation
1
DifferentialSplicing
1
core-package
1
MotifDiscovery
1
ResearchField
1
Technology
1
r-package
1
transcript-model
1
KEGG
1
Reactome
1
biology
1
intermine
1
ThirdPartyClient
1
GeneticVariability
1
IndelDetection
1
MultipleSequenceAlignment
1
GeneFusionDetection
1
VariantDetection
1